Table 3 |
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Genes with functional annotation that are up-regulated in cBF as compared to PF-loga |
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Description |
SysID (fold changeb, signal in cBF) |
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Nucleic acid |
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cold shock DNA binding domain protein |
Tb927.4.4520 (3.8, 11127), Tb927.8.7820(3.1, 30733) |
|
DNA binding motif protein |
Tb927.8.8270 (2.1, 5130) |
|
methylated DNA binding motif protein |
Tb09.160.1490 (2.1, 6911) |
|
SNF2 DNA repair protein |
Tb927.7.4650 (3.6, 9704) |
|
DNA topoisomerase II |
Tb11.01.3390 (2.2, 20052) |
|
heterogeneous nuclear ribonucleoprotein H/F |
Tb927.2.3880 (2.5, 19993) |
|
RNA-binding protein |
Tb927.6.3480 (4.6, 15068), Tb927.7.3730 (2.4, 19060), Tb927.8.2780 (4.1, 22483, Tb10.389.1640 (2.9, 4885), Tb11.01.3940 (2.9, 6039) |
|
Interaction Motifs |
|
|
hypothetical conserved, ankyrin repeat |
Tb11.01.6010 (2.1, 9639), Tb927.7.1420 (2.2, 13373) |
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hypothetical conserved, FHA and BRCT domains |
Tb927.4.500 (2.6, 10222) |
|
hypothetical conserved, PX domain |
Tb927.7.4500 (2.3, 19542) |
|
hypothetical conserved, RING finger |
Tb10.70.3560 (2.4, 6310) |
|
hypothetical conserved, zinc finger |
Tb10.389.0740 (7.6, 16571), Tb10.70.2020 (4.7, 8391), Tb11.01.0220 (2.7, 20691), Tb10.70.1850 (2.7, 3725), Tb09.211.1720 (2.5, 18066), Tb927.3.5390 (2.3, 3358), Tb11.01.0090 (2.1, 19108), Tb11.02.2470 (2.0, 15163), Tb11.01.8270 (2.3,18420) |
|
leucine-rich repeat protein |
Tb11.02.1564 (5.1, 5086), Tb927.3.1490 (4.8, 3199), Tb927.3.580 (3.2, 7044), Tb11.02.1580 (2.2, 15932) |
|
zinc-binding protein (Yippee) |
Tb927.6.4810 (1.9, 3902) |
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Metabolism |
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acidic phosphatase |
Tb927.5.610 (3.9, 21844) |
|
acidocalcisomal pyrophosphatase VSP1 |
Tb11.02.4930 (2, 21100) |
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alternative oxidase |
Tb10.6k15.3640 (5.2, 25749) |
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arginine kinase |
Tb09.160.4570+1 (2.1, 8792) |
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aspartate aminotransferase |
Tb10.70.3710 (2.2,10132) |
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ATP-dependent phosphofructokinase |
Tb927.3.3270 (2.7, 35922) |
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Diacylglycerol kinase catalytic domain |
Tb927.8.5140 (2.2,16973) |
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sphingolipid delta 4 desaturase |
Tb927.6.3000 (2.3,10540) |
|
fructose-1,6-bisphosphatase |
Tb09.211.0540 (2.3,13478) |
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glutathionylspermidine synthetase |
Tb11.12.0016 (2.1, 20983) |
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guanine deaminase |
Tb05.5K5.200+1 (2, 7271) |
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haloacid dehalogenase-like hydrolase |
Tb11.01.0120 (2.3, 8482) |
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hexokinase 1 |
Tb10.70.5820* (13.4, 27920) |
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hypothetical conserved, serine-esterase like motif |
Tb11.01.3580 (2.2, 10321) |
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iron/ascorbate oxidoreductase family protein |
Tb927.2.6180 (13.2, 6052), Tb927.2.6230 (6.9, 13271), Tb927.2.6310 (3.3, 8181) |
|
lipase domain protein |
Tb927.3.3870 (3.1, 13228) |
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nucleoside phosphorylase |
Tb927.8.4430 (3.2, 23275) |
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phosphoglycerate kinase, glycosomal |
Tb927.1.700* (10.1, 32849) |
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pyruvate kinase 1 |
Tb10.61.2680* (3.5, 35164) |
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sphingomyelin synthase family |
Tb09.211.1020 (3.1, 9771), Tb09.211.1010 (2.3,)12554 |
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Protein or lipid phosphorylation |
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casein kinase I, CK1 |
Tb10.70.5340 (2.6,12672) |
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cdc2-related protein kinase |
Tb11.47.0031 (3.1, 15760) |
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cyclin 3, mitotic cyclin |
Tb927.6.1460 (2.4, 11043) |
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dual specificity phosphatase |
Tb11.02.1640 (2.3, 5100) |
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protein kinase |
Tb927.5.3320 (2.4, 6629) |
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serine/threonine-protein kinase, NEK family |
Tb927.2.2120 (2.2, 11101), Tb927.4.5310 (2.6, 13985), Tb927.8.7110 (2, 16132) |
|
TFIIF-stimulated CTD phosphatase |
Tb927.3.3380 (3, 8247), Tb10.61.2520 (2.5, 16649) |
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Protease-related |
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|
calpain cysteine peptidase |
Tb927.8.8330 (3.3, 19000) |
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cysteine peptidase C |
Tb927.6.560 (2, 17546) |
|
Gp63 major surface protease homolog |
Tb11.02.5310 (2.3, 16249), Tb10.70.5290* (5.2,14867), Tb11.02.5630 (4.2, 10649), Tb11.02.5610 (3.7, 6645), Tb11.02.5640 (3.3, 12431), Tb11.0370 (3.6, 4695), Tb11.0380 (2.6, 10329), Tb11.0360 (3.4, 9307) |
|
hypothetical conserved, OTU protease domain |
Tb927.8.5050 (2.2, 13601) |
|
hypothetical conserved, UIM domain |
Tb10.70.1130 (2.2, 20751) |
|
inhibitor of cysteine peptidase chagasin family |
Tb927.8.6450 (2, 29643) |
|
metacaspase |
Tb11.02.0730 (2.4, 11810), Tb927.6.930 (3, 1906), Tb10.70.5250 (15.1, 15483) |
|
serine carboxypeptidase (CBP1) |
Tb10.70.7090 (3.9, 16383) |
|
serine peptidase |
Tb927.3.4230 (2.7, 11496) |
|
signal peptidase type I |
Tb927.5.3220 (2.2, 13695) |
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Protein folding, modification and transport |
|
|
acetyltransferase |
Tb927.1.4490 (2.7, 4473) |
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ADP-ribosylation factor |
Tb11.01.6060 (2.2, 4625) |
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chaperone protein DNAJ |
Tb927.4.3980 (3.4, 10760), Tb927.6.3120 (2.5, 17514) |
|
dynamin vacuolar sortin protein 1 |
Tb927.3.4720 (2.3, 13449) |
|
GPI inositol deacylase precursor |
Tb10.70.2420 (2.6, 21099) |
|
heat shock protein HSP70-like protein |
Tb09.160.3090 (2.4, 26203) |
|
HSR1-related GTP binding protein |
Tb927.4.2380 (2.0, 16054) |
|
hypothetical conserved, TRAP alpha motif |
Tb927.7.2190 (2.1, 3176) |
|
oligosaccharyl transferase subunit |
Tb927.5.890 (2.9, 10460) |
|
protein disulfide isomerase, bloodstream-specific |
Tb10.6k15.2290 (2.4, 28599) |
|
UDP-Gal/GlcNAc-dependent glycosyltransferase |
Tb927.3.5660 (2.0, 9638), Tb927.7.300 (2.1, 19406) |
|
Surface or secreted, transporters |
|
|
64 kDa invariant surface glycoprotein |
Tb927.5.1390 (5.5, 7559), Tb927.5.1430 (3.6, 6582), Tb927.5.1410* (17.1, 5352), Tb927.2.3270* (6.9, 18103), Tb927.2.3300* +3 (5.6, 13407), Tb927.2.332* (8.1, 14544), Tb11.47.0001* (3.3, 10214) |
|
75 kDa invariant surface glycoprotein |
Tb927.5.350 (2.4, 13044), Tb927.5.360-Tb927.5.360b (4.7, 17510), Tb927.5.370 (6.2, 11233), Tb927.5.400 (4.2, 13688), Tb927.5.390* (5.9, 17712) |
|
acidic phosphatase (ISG65-like) |
Tb927.5.630 (3.7, 29580) |
|
flagellum-adhesion glycoprotein |
Tb927.8.4060 (4.5, 11088) |
|
glycophosphatidylinositol phospholipase |
Tb927.2.600* (3.4, 17679) |
|
haptoglobin-hemoglobin receptor |
Tb927.6.440 (4.0, 15595) |
|
ABC transporter |
Tb11.02.3950 (2.1, 11483) |
|
adenosine transporter |
Tb927.5.286b (2.3, 9396), Tb927.2.6200 (19.5, 2940), Tb927.2.6220 (20.7, 3409), Tb927.2.6320 (8.4, 10291), Tb927.2.6280 (20.1, 7137), Tb927.2.6240 (20.7, 7104) |
|
amino acid transporter |
Tb927.4.4020 (2.7, 26379), Tb927.4.4860 (2.3, 9610) |
|
aquaglyceroporin |
Tb10.61.2650 (4.2, 28913) |
|
glucose transporter |
Tb10.6k15.2040 (2.7, 48061), Tb10.6k15.2030 (4.4, 23370) |
|
glycerol uptake protein |
Tb10.61.0380 (2.3, 11746) |
|
major facilitator superfamily protein |
Tb927.3.4070 (5.3, 24190), Tb927.3.4090 (5.1, 9918), Tb10.61.2750 (2.5, 8885) |
|
UDP-galactose transporter |
Tb927.4.1640 (2.3, 5225) |
|
Vacuolar-type Ca2+-ATPase 2 |
Tb927.8.1200 (2.5, 14542) |
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Other |
|
|
kinesin |
Tb10.61.1750 (5.0, 24612), Tb927.6.4390 (2.4, 12826), Tb927.7.4110 (2.5, 4714) |
|
nucleolar protein |
Tb09.160.1180 (2.3, 4877) |
|
procyclin-associated gene |
Tb10.70.1310 (3.6, 9070), Tb10.70.1300 (9.9, 7362), Tb11.01.6210 (3.3, 22849), Tb11.01.6220 (4.1, 10444) |
|
retrotransposon hot spot protein |
Tb09.v4.0013 (7.2, 3458), Tb09.244.2180 (2.8, 1283) |
|
sarcoplasmic reticulum glycoprotein |
Tb10.61.1710 (2.0, 9921) |
|
VSG-related |
Tb927.1.5060 (2.5, 5925), Tb927.1.5170 (7.0, 8241), Tb927.2.2060 (3.1, 8575), Tb927.3.1470-Tb927.3.1520 (4.3, 7116), Tb927.3.1500 (33.1, 13722), Tb927.3.1510 (12.5, 1450) Tb927.3.2540 (3.3, 2297), Tb927.3.5680 (6.1, 1903), Tb927.5.110 (4.1, 1468), Tb927.5.130 (5.4, 5216), Tb927.8.7300+1 (3.7, 16812), Tb09.160.5350 (3.4, 9129), Tb09.v1.0300+1 (4.4, 6354), Tb09.v1.0290+1 (4.2, 6386), Tb09.244.2330 (5.2, 3974), Tb09.244.2310 (7.6, 2584), Tb09.244.2280 (3.1, 881), Tb09.244.2240 (5.1, 2605), Tb09.244.2200 (4.3, 2404), Tb11.02.1566 (8.0, 12758) |
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aESAGs, GRESAGS, VSGs are not included. A complete list of the genes is found in Additional file 3. bBold: gene was upregulated in all BF vs all PF conditions. Probe-sets detecting >1 gene indicated by "+", plus number of additional genes. * marks known stage-regulated genes used in previous array study [12]. |
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Jensen et al. BMC Genomics 2009 10:482 doi:10.1186/1471-2164-10-482 |
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